Fig. 1

Genome-wide DNA methylation profiles of the non-decidualized and decidualized ESCs. a: Histograms of the DNA methylation levels (beta-values) of 482,005 CpGs in the non-decidualized and decidualized ESCs. In each range of beta-values (0.2>, 0.2 to 0.7, and 0.7<), the frequencies and the ratios of the methylated CpGs to all CpGs are shown. b: Scatterplot of the beta-values in the non-decidualized and decidualized ESCs. The CpGs are plotted according to the beta-values of the non-decidualized (horizontal axis) and decidualized ESCs (vertical axis). Dashed lines show minimum beta-value changes of 0.30. Red dashed lines indicate the cut-off beta-values for the CpCs which have increased beta-values during decidualization while blue dashed lines indicate the cut-off values for the CpGs which have decreased beta-values. c: DNA methylation level vs. gene position in the non-decidualized (top) and decidualized ESCs (bottom). The DNA methylation profiles of upstream region (from − 1500 bp to transcription start site), gene body region (from transcription start site to transcription end site) and downstream region (from transcription end site to + 1000 bp) of the genes are shown. In the gene body region, the distance from transcription start site to transcription end site was rescaled into the range of [0–1] as previously reported [18]. Median (50%), 25 and 75% tile beta-values are plotted in the non-decidualized and decidualized ESCs (c). Vertical and horizontal lines show beta-values the position relative to the transcription start site